Decouple flask app

app/routes.py

@@ -337,7 +337,6 @@ def add_organization():
     )
 
 
-@mod.route("/organization/", methods=["GET"])
 @mod.route("/organizations/", methods=["GET"])
 def view_organizations():
     organizations = db.get_all_organizations()
@@ -472,16 +471,16 @@ def view_harvest_source_data(source_id: str):
         count=True,
         skip_pagination=True,
         source_id=source.id,
-        facets=["ckan_id != null"],
+        facets="ckan_id is not null",
     )
     error_records_count = db.get_harvest_records_by_source(
         count=True,
         skip_pagination=True,
         source_id=source.id,
-        facets=["status = 'error'"],
+        facets="status = 'error'",
     )
-    # TODO: wire in paginated jobs query
-    jobs = db.get_all_harvest_jobs_by_filter({"harvest_source_id": source.id})
+    # TODO: wire in paginated jobs htmx refresh ui & route
+    jobs = db.pget_harvest_jobs(facets=f"harvest_source_id = '{source.id}'")
     next_job = "N/A"
     future_jobs = db.get_new_harvest_jobs_by_source_in_future(source.id)
     if len(future_jobs):
@@ -528,7 +527,6 @@ def view_harvest_source_data(source_id: str):
     return render_template("view_source_data.html", data=data)
 
 
-@mod.route("/harvest_source/", methods=["GET"])
 @mod.route("/harvest_sources/", methods=["GET"])
 def view_harvest_sources():
     sources = db.get_all_harvest_sources()
@@ -745,18 +743,45 @@ def get_harvest_record(record_id):
 def get_harvest_records():
     job_id = request.args.get("harvest_job_id")
     source_id = request.args.get("harvest_source_id")
-    page = request.args.get("page")
+    paginate = request.args.get("paginate", type=bool)
+    skip_pagination = request.args.get("skip_pagination", type=bool)
+    count = request.args.get("count", type=bool)
+    page = request.args.get("page", type=int)
+    facets = request.args.get("facets", "")
     if job_id:
-        records = db.get_harvest_records_by_job(job_id, page)
-        if not records:
-            return "No harvest records found for this harvest job", 404
+        records = db.get_harvest_records_by_job(
+            job_id,
+            page=page,
+            paginate=paginate,
+            skip_pagination=skip_pagination,
+            facets=facets,
+        )
+
     elif source_id:
-        records = db.get_harvest_records_by_source(source_id, page)
+        records = db.get_harvest_records_by_source(
+            source_id,
+            page=page,
+            paginate=paginate,
+            skip_pagination=skip_pagination,
+            count=count,
+            facets=facets,
+        )
         if not records:
             return "No harvest records found for this harvest source", 404
     else:
-        records = db.pget_harvest_records(page)
-    return db._to_dict(records)
+        records = db.pget_harvest_records(
+            page=page,
+            paginate=paginate,
+            skip_pagination=skip_pagination,
+            facets=facets,
+        )
+
+    if not records:
+        return "No harvest records found for this query", 404
+    elif isinstance(records, int):
+        return f"{records} records found", 200
+    else:
+        return db._to_dict(records)
 
 
 @mod.route("/harvest_record/<record_id>/raw", methods=["GET"])
@@ -818,27 +843,6 @@ def get_data_sources():
     return render_template("get_data_sources.html", sources=source, organizations=org)
 
 
-## Test interface, will remove later
-@mod.route("/delete_all_records", methods=["DELETE"])
-def delete_all_records():
-    db.delete_all_harvest_records()
-    return "All harvest records deleted"
-
-
-## Test interface, will remove later
-@mod.route("/add_harvest_job_error", methods=["POST"])
-def add_harvest_job_error():
-    db.add_harvest_job_error(request.json)
-    return "Added harvest job error"
-
-
-## Test interface, will remove later
-@mod.route("/add_harvest_record_error", methods=["POST"])
-def add_harvest_record_error():
-    err = db.add_harvest_record_error(request.json)
-    return db._to_dict(err)
-
-
 def register_routes(app):
     app.register_blueprint(mod)
     app.register_blueprint(user)

database/interface.py

@@ -7,10 +7,12 @@
 
 import ckanapi
 from ckanapi import RemoteCKAN
-from sqlalchemy import create_engine, func, inspect, or_, select, text
+from sqlalchemy import create_engine, func, inspect, select, text
 from sqlalchemy.exc import NoResultFound
 from sqlalchemy.orm import scoped_session, sessionmaker
 
+from harvester.utils.general_utils import query_filter_builder
+
 from .models import (
     HarvestJob,
     HarvestJobError,
@@ -224,8 +226,9 @@ def _clear_harvest_records():
 
         ckan_ids = [record.ckan_id for record in records if record.ckan_id is not None]
         error_records = [record for record in records if record.status == "error"]
-        jobs_in_progress = self.get_all_harvest_jobs_by_filter(
-            {"harvest_source_id": source.id, "status": "in_progress"}
+        jobs_in_progress = self.pget_harvest_jobs(
+            facets=f"harvest_source_id = '{source.id}', 'status' = 'in_progress'",
+            paginate=False,
         )
 
         # Ensure no jobs are in progress
@@ -325,10 +328,6 @@ def add_harvest_job(self, job_data):
     def get_harvest_job(self, job_id):
         return self.db.query(HarvestJob).filter_by(id=job_id).first()
 
-    def get_all_harvest_jobs_by_filter(self, filter):
-        harvest_jobs = self.db.query(HarvestJob).filter_by(**filter).all()
-        return [job for job in harvest_jobs or []]
-
     def get_first_harvest_jobs_by_filter(self, filter):
         harvest_job = (
             self.db.query(HarvestJob)
@@ -361,11 +360,6 @@ def get_new_harvest_jobs_by_source_in_future(self, source_id):
         )
         return [job for job in harvest_jobs or []]
 
-    def get_harvest_jobs_by_faceted_filter(self, attr, values):
-        query_list = [getattr(HarvestJob, attr) == value for value in values]
-        harvest_jobs = self.db.query(HarvestJob).filter(or_(*query_list)).all()
-        return [job for job in harvest_jobs]
-
     def update_harvest_job(self, job_id, updates):
         try:
             job = self.db.get(HarvestJob, job_id)
@@ -463,6 +457,7 @@ def add_harvest_record(self, record_data):
             self.db.rollback()
             return None
 
+    # TODO: should we delete this if it's not used in code.
     def add_harvest_records(self, records_data: list) -> dict:
         """
         Add many records at once
@@ -524,6 +519,22 @@ def get_latest_harvest_records_by_source(self, source_id):
 
         return [dict(zip(fields, record)) for record in records]
 
+    def get_all_latest_harvest_records_by_source(self, source_id):
+        # datetimes are returned as datetime objs not strs
+        sql = text(
+            f"""SELECT DISTINCT ON (identifier) *
+                FROM harvest_record
+                WHERE harvest_source_id = '{source_id}'
+                ORDER BY identifier, date_created DESC"""
+        )
+
+        res = self.db.execute(sql)
+
+        fields = list(res.keys())
+        records = res.fetchall()
+
+        return [dict(zip(fields, record)) for record in records]
+
     def close(self):
         if hasattr(self.db, "remove"):
             self.db.remove()
@@ -602,29 +613,32 @@ def verify_user(self, usr_data):
     #### PAGINATED QUERIES ####
     @count
     @paginate
-    def pget_harvest_jobs(self, filter=text(""), **kwargs):
-        return self.db.query(HarvestJob).filter(filter)
+    def pget_harvest_jobs(self, facets="", **kwargs):
+        facet_string = query_filter_builder(None, facets)
+        return self.db.query(HarvestJob).filter(text(facet_string))
 
     @count
     @paginate
-    def pget_harvest_records(self, filter=text(""), **kwargs):
-        return self.db.query(HarvestRecord).filter(filter)
+    def pget_harvest_records(self, facets="", **kwargs):
+        return self.db.query(HarvestRecord).filter(text(facets))
 
     @count
     @paginate
-    def pget_harvest_job_errors(self, filter=text(""), **kwargs):
-        return self.db.query(HarvestJobError).filter(filter)
+    def pget_harvest_job_errors(self, facets="", **kwargs):
+        return self.db.query(HarvestJobError).filter(text(facets))
 
     @count
     @paginate
-    def pget_harvest_record_errors(self, filter=text(""), **kwargs):
-        return self.db.query(HarvestRecordError).filter(filter)
+    def pget_harvest_record_errors(self, facets="", **kwargs):
+        return self.db.query(HarvestRecordError).filter(text(facets))
 
-    #### FACETED BUILDER QUERIES ####
-    def get_harvest_records_by_job(self, job_id, facets=[], **kwargs):
-        filter_string = " AND ".join([f"harvest_job_id = '{job_id}'"] + facets)
-        return self.pget_harvest_records(filter=text(filter_string), **kwargs)
+    #### FILTERED BUILDER QUERIES ####
+    def get_harvest_records_by_job(self, job_id, facets="", **kwargs):
+        facet_string = query_filter_builder(f"harvest_job_id = '{job_id}'", facets)
+        return self.pget_harvest_records(facets=facet_string, **kwargs)
 
-    def get_harvest_records_by_source(self, source_id, facets=[], **kwargs):
-        filter_string = " AND ".join([f"harvest_source_id = '{source_id}'"] + facets)
-        return self.pget_harvest_records(filter=text(filter_string), **kwargs)
+    def get_harvest_records_by_source(self, source_id, facets="", **kwargs):
+        facet_string = query_filter_builder(
+            f"harvest_source_id = '{source_id}'", facets
+        )
+        return self.pget_harvest_records(facets=facet_string, **kwargs)

docker-compose.yml

@@ -27,6 +27,7 @@ services:
         retries: 5
   transformer:
       image: ghcr.io/gsa/mdtranslator:latest
+      restart: always
       env_file:
         - .env
       environment: